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ImmPort strategies to enhance discoverability of clinical trial data

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Describes strategies for submission of clinical trial data to the NIAID Immunology Database and Analysis Portal in order to advance discoverability, comparability and analysis

Describes strategies for submission of clinical trial data to the NIAID Immunology Database and Analysis Portal in order to advance discoverability, comparability and analysis


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  • 1. ImmPort: Strategies to Enhance Discoverability of Clinical Trial Data Barry Smith http://ontology.buffalo.edu/smith https://immport.niaid.nih.gov 1
  • 2. pipeline 2
  • 3. BISC pipeline PIs, hospitals, biostatisticians … 3
  • 4. BISC pipeline PIs, hospitals, biostatisticians … 4 Northrop Grumman
  • 5. BISC pipeline PIs, hospitals, biostatisticians … 5 Northrop Grumman Max & Mindy
  • 6. BISC pipeline perform study & collect data analyze data (SAS …) submit data to ImmPort process & de-identify, data in ImmPort discover, aggregate, analyze, data in ImmPort
  • 7. pipeline is siloed by heterogeneous terminologies and standards perform study & collect data analyze data (SAS …) submit data to ImmPort process & de-identify, data in ImmPort discover, aggregate, analyze, data in ImmPort
  • 8. siloes break discovery, comparability and analysis perform study & collect data analyze data (SAS …) submit data to ImmPort process & de-identify, data in ImmPort discover, compare, analyze, data in ImmPort
  • 9. 9
  • 10. 10 76 results; 0 results for ImmPort
  • 11. how break down terminology-created silo walls? perform study & collect data analyze data (SAS …) submit data to ImmPort process & de-identify, data in ImmPort discover, aggregate, analyze, data in ImmPort standards and software CDISC, SDTM EHRs, ELNs, CTMSs standards and software ImmPort templates MYSQL … 11
  • 12. Immune-Related Ontologies (examples) Protein Ontology (PRO) Gene Ontology (GO) Cell Ontology (CL) Immune Epitope Ontology Beta Cell Genomics Ontology Infectious Disease Ontology Allergy Ontology Antibody Ontology CDISC2RDF CL+ (for CyTOF) Cytokine Ontology Immunology Ontology VDJ Ontology http://ncorwiki.buffalo.edu/index.php/Immunology_Ontologies 12
  • 13. these ontologies are already being used by Max and Mindy perform study & compile data analyze data (SAS …) submit data to ImmPort process & de-identify, data in ImmPort discover, aggregate, analyze, data in ImmPort standards and software CDISC, SDTM EHRs, ELNs, CTMSs standards and software ImmPort templates html, SQL .. immune- related ontologies GO, PRO, CL, …
  • 14. pipeline perform study & compile data analyze data (SAS …) submit data to ImmPort process & de-identify, data in ImmPort discover, aggregate, analyze, data in ImmPort standards and software ImmPort templates html, SQL .. immune-related ontologies GO, PRO, CL, … CDISC2RTF standards and software CDISC, SDTM EHRs, ELNs, CTMSs 14
  • 15. strategies • FDA-CDISC-CDISC2RDF • LabKey / Electronic Lab Notebook strategy • training submitters and users 15
  • 16. Rho strategy PIs, hospitals, contract research organizations (CROs): Rho Federal Systems Division Northrop Grumman Max, Mindy 16
  • 17. ImmPort: Training and Strategy Meeting Rho Federal Systems Division, Chapel Hill, Oct. 9-10 – to provide assistance to actual and potential submitters of data to ImmPort – to enable interaction between submitters and those charged with managing ImmPort – to improve discoverability and usability of data from ImmPort Speakers Ashley Xia (NIAID) Barry Smith (Buffalo / BISC) Jeff Wiser (NG / BISC) David Iklé, John Lim, Karen Kesler (Rho) http://ncorwiki.buffalo.edu/index.php/ImmPort 17
  • 18. one idea: an ontologically informed CTMS incrementally removing silos through the entire ImmPort pipeline PIs, hospitals, CROs: Rho Federal Systems Division Northrop Grumman Max, Mindy 18
  • 19. not only would this make life easier for all the participants listed here: PIs, hospitals, CROs: Rho Federal Systems Division Northrop Grumman Max, Mindy, Atul … 19
  • 20. it would also make ImmPort data discoverable by external researchers PIs, hospitals, CROs Northrop Grumman de-identified patient data 20